Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold133
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2564099
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17052 characters in sequence are not A, C, G, or T
File 14 of 17
Found at i:1911800 original size:34 final size:33
Alignment explanation
Indices: 1911685--1912549 Score: 755
Period size: 34 Copynumber: 25.9 Consensus size: 33
1911675 TCAAATACCT
* * * *
1911685 TTTTAAAGTCCACGACTCAGTGGCA-TTTTGTC
1 TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
* * * *
1911717 --TCAAAGTCCACGACTCAGTGGCA-TTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
*
1911747 -TTTAAAGCCCACAATTCCGTGGCACTTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
* *
1911779 ATCTTT-AAGTCCACAACTCCGTGGCAC-----CC
1 -T-TTTAAAGCCCACAACTCCGTGGCACTTTTTTC
* * **
1911808 TTTTAAAGCCCACAATTCTGTGGCACTTTCATC
1 TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
*
1911841 ATCTTT-AAGTCCACAACTCCGTGGCAC------C
1 -T-TTTAAAGCCCACAACTCCGTGGCACTTTTTTC
* *
1911869 TGTTT-AAGCCCACAACTCTGTGGCACCTTTTTC
1 T-TTTAAAGCCCACAACTCCGTGGCACTTTTTTC
*
1911902 TTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 -TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
*
1911936 TTTTAAAGCCCACAACTCTGTGGCACTTTTTTTCCC
1 TTTTAAAGCCCACAACTCCGTGGCAC-TTTTTT--C
*
1911972 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
*
1912006 TGTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCTC
1 T-TTTAAAGCCCACAACTCCGTGGCA--CTTTTT-TC
* *
1912043 TTTTCAAAGCCCACGACTCCGTGGTAC-----TC
1 TTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
* *
1912072 -TTTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
*
1912104 TTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 TTTT-AAAGCCCACAACTCCGTGGCACT-TTTTT--C
* *
1912141 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
*
1912175 TTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 TTTT-AAAGCCCACAACTCCGTGGCACT-TTTTT--C
*
1912212 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
1912246 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCAC
1 T-TTTAAAGCCCACAACTCCGTGGCACT-TTTTT--C
* * * *
1912283 TTTTTAAAGCCCACAGCTCCATGGCACCTTCTTC
1 -TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
* * *
1912317 TTTTCAAAGCCCACAACTCTGTGGCACCTTCTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
* * *
1912351 TTTTCAAAGCCCACGACTCTGTGGCAC---TCT-
1 TTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
* *
1912381 TTTTAAAGCCTACAACTCCGTGGCACCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
1912414 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTTAAAGCCCACAACTCCGTGGCACT-TTTTT--C
1912451 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
1912485 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTAAAGCCCACAACTCCGTGGCACT-TTTTT--C
*
1912521 TTTT-AAGTCCACAACTCCGTGGCATCTTT
1 TTTTAAAGCCCACAACTCCGTGGCA-CTTT
1912550 CTCCCTTCTC
Statistics
Matches: 710, Mismatches: 61, Indels: 121
0.80 0.07 0.14
Matches are distributed among these distances:
27 46 0.06
28 23 0.03
29 22 0.03
30 32 0.05
31 19 0.03
32 11 0.02
33 61 0.09
34 252 0.35
35 52 0.07
36 46 0.06
37 145 0.20
38 1 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
Found at i:1911882 original size:27 final size:27
Alignment explanation
Indices: 1911844--1911896 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1911834 TTTCATCATC
*
1911844 TTTAAGTCCACAACTCCGTGGCACCTG
1 TTTAAGCCCACAACTCCGTGGCACCTG
*
1911871 TTTAAGCCCACAACTCTGTGGCACCT
1 TTTAAGCCCACAACTCCGTGGCACCT
1911897 TTTTCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCTG
Found at i:1912046 original size:71 final size:69
Alignment explanation
Indices: 1911717--1912549 Score: 820
Period size: 71 Copynumber: 12.4 Consensus size: 69
1911707 GCATTTTGTC
* * * * * *
1911717 TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAATTCCGTGGCACTTTTTTCA
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-
1911780 TC-TT
65 TCTTT
* * * *
1911784 T--AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCA-CTTTCATC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTT-TTC
1911841 ATC-TT
65 -TCTTT
* * *
1911846 T--AAGTCCACAACTCCGTGGCACC----T-GTTT-AAGCCCACAACTCTGTGGCACCTTTTTCT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
1911903 -TTT
66 CTTT
* *
1911906 T-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTTTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC
*
1911970 CCTTT
65 TCTTT
*
1911975 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTTCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
1912040 CTCTTT
64 CTCTTT
* * *
1912046 TCAAAGCCCACGACTCCGTGGTA-C----TC-TTTAAAGCCCACAACTCCGTGGCACC-TTCT-T
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
1912103 CTTT
66 CTTT
*
1912107 TCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC-TT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACCTTT
*
1912171 CT-TCTTT
62 TTCTCTTT
*
1912178 TCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACCTTT
*
1912243 TTCT-GTT
62 TTCTCTTT
* *
1912250 T-AAAGCCCACAACTCCGTGGCACTCTTTTTCACTTTTTAAAGCCCACAGCTCCATGGCACC-TT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--C-TTTTAAAGCCCACAACTCCGTGGCACCTTT
*
1912313 CT-TCTTT
62 TTCTCTTT
* * * *
1912320 TCAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCTGTGGCA-C----TC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
1912380 T-TTT
65 TCTTT
*
1912384 T-AAAGCCTACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
*
1912448 CCCTTT
64 CTCTTT
*
1912454 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC
*
1912519 CCTTT
65 TCTTT
* *
1912524 T--AAGTCCACAACTCCGTGGCATCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTT
1912550 CTCCCTTCTC
Statistics
Matches: 674, Mismatches: 49, Indels: 85
0.83 0.06 0.11
Matches are distributed among these distances:
60 4 0.01
61 71 0.11
62 63 0.09
63 48 0.07
64 32 0.05
65 21 0.03
66 5 0.01
67 28 0.04
68 46 0.07
69 8 0.01
70 88 0.13
71 249 0.37
72 10 0.01
73 1 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (69 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
CTTT
Found at i:1912107 original size:168 final size:170
Alignment explanation
Indices: 1911874--1912570 Score: 786
Period size: 168 Copynumber: 4.1 Consensus size: 170
1911864 GCACCTGTTT
* *
1911874 AAGCCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CT
1 AAGCCCACAACTCCGTGGCACC---TTC-GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
* *
1911937 TTT-AAAGCCCACAACTCTGTGGCACTTTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCT
62 TTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTCAAAGCCCACAACTCCGTGGCACCT
* *
1912001 TTTTCTGTTT-AAAGCCCACAACT-TCGTGGCACTCTTTTTCTCTTTTCA
124 TCTTCT-TTTCAAAGCCCACAACTCT-GTGGCA-TCTTTTTCCCTTTTCA
* * *
1912049 AAGCCCACGACTCCGTGGTA-C-TC-TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTTTC
1 AAGCCCACAACTCCGTGGCACCTTCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTC
*
1912109 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
66 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
1912174 CTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCA
128 CTTTTCAAAGCCCACAACTCTGTGGCA-TCTTTTTCCCTTTTCA
1912218 AAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCAC
1 AAGCCCACAACTCCGTGGCACC---TTC-GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-C
* * * * *
1912283 TTTTTAAAGCCCACAGCTCCATGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTC
61 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTC
* *
1912348 TTCTTTTCAAAGCCCACGACTCTGTGGCA-C----T--CTTTTTA
126 TTCTTTTCAAAGCCCACAACTCTGTGGCATCTTTTTCCCTTTTCA
*
1912386 AAGCCTACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAGCCCACAACTCCGTGGCACC---TTC-GTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CC
*
1912451 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTT
61 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCAC-CTT
* * * * *
1912515 TTTCCCTTTT--AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCTCTA
125 CTT--CTTTTCAAAGCCCACAACTCTGTGGCATCTTTTTCCCTTTTC-A
1912562 AAGCCCACA
1 AAGCCCACA
1912571 CAAGTCGGTG
Statistics
Matches: 465, Mismatches: 32, Indels: 49
0.85 0.06 0.09
Matches are distributed among these distances:
167 21 0.05
168 161 0.35
169 120 0.26
170 10 0.02
173 1 0.00
174 4 0.01
175 21 0.05
176 93 0.20
177 5 0.01
178 5 0.01
179 24 0.05
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (170 bp):
AAGCCCACAACTCCGTGGCACCTTCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTC
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
TTCAAAGCCCACAACTCTGTGGCATCTTTTTCCCTTTTCA
Found at i:1912603 original size:239 final size:234
Alignment explanation
Indices: 1911750--1912570 Score: 972
Period size: 239 Copynumber: 3.5 Consensus size: 234
1911740 TTTTTTCTTT
* * * *
1911750 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCA--------C
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
* * *
1911806 CCTTTTAAAGCCCACAATTCTGTGGCACTTTCATCATCTT-T-AAGTCCACAACTCCGTGGCA-C
65 CCTTTTAAAGCCCACAACTCCGTGGCAC-TTC-TC-T-TTCTAAAGCCCACAACTCCGTGGCACC
*
1911868 -C-T-GTTT--AAGCCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA
126 TCTTCTTTTCAAAGCCCACAACTCTGTGGCA-C----TCTTTTTAAAGCCCACAACTCCGTGGCA
*
1911928 CCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTTTTTTTCCCTTTTC
186 CCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
* *
1911977 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
* *
1912042 CTTTTCAAAGCCCACGACTCCGTGG---TACTC-TT-TAAAGCCCACAACTCCGTGGCACCTTCT
66 CTTTT-AAAGCCCACAACTCCGTGGCACTTCTCTTTCTAAAGCCCACAACTCCGTGGCACC-TCT
1912102 TCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA
129 TCTTTTCAAAGCCCACAACTCTGTGGCACTC----T---TTTT-AAAGCCCACAACTCCGTGGCA
*
1912167 CCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
186 CCTTTTTCTTTT-AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1912217 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCA
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-
* * * *
1912282 CTTTTTAAAGCCCACAGCTCCATGGCACCTTCTTCTTT-TCAAAGCCCACAACTCTGTGGCACCT
65 CCTTTTAAAGCCCACAACTCCGTGGCA-CTTC-TCTTTCT-AAAGCCCACAACTCCGTGGCACC-
* *
1912346 TCTTCTTTTCAAAGCCCACGACTCTGTGGCACTCTTTTTAAAGCCTACAACTCCGTGGCACCTTT
126 TCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
*
1912411 TTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
191 TTCT-TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
*
1912456 AAAGCCCACAACTCCGTGGCACTTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
1912520 CTTTT-AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCTCTAAAGCCCACA
66 CTTTTAAAGCCCACAACTCCGTGGCA-C-TTCT--CTT-TCTAAAGCCCACA
1912571 CAAGTCGGTG
Statistics
Matches: 521, Mismatches: 32, Indels: 70
0.84 0.05 0.11
Matches are distributed among these distances:
226 4 0.01
227 45 0.09
228 3 0.01
229 19 0.04
230 1 0.00
231 4 0.01
232 3 0.01
233 1 0.00
234 3 0.01
235 8 0.02
236 55 0.11
237 8 0.02
238 40 0.08
239 136 0.26
240 123 0.24
241 4 0.01
243 1 0.00
244 2 0.00
245 2 0.00
246 3 0.01
247 56 0.11
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (234 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
CTTTTAAAGCCCACAACTCCGTGGCACTTCTCTTTCTAAAGCCCACAACTCCGTGGCACCTCTTC
TTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
TTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
Found at i:1912671 original size:33 final size:34
Alignment explanation
Indices: 1912552--1912692 Score: 232
Period size: 34 Copynumber: 4.2 Consensus size: 34
1912542 GCATCTTTCT
1912552 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1912586 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
1912620 CCCTTCTCCAAAGCCCACACAAGTTGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
1912653 CCATTATCTAAAGCCCACACAAGTCGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1912686 CCCTTCT
1 CCCTTCT
1912693 AAGCCCAATA
Statistics
Matches: 99, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
33 36 0.36
34 63 0.64
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.19
Consensus pattern (34 bp):
CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:1912750 original size:49 final size:49
Alignment explanation
Indices: 1912692--1913066 Score: 521
Period size: 49 Copynumber: 7.7 Consensus size: 49
1912682 GCAACCCTTC
* * * *
1912692 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1912741 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1912790 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1912839 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1912888 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1912936 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1912979 TAAGTCCAATATAGCTGGCCCTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
1913031 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1913067 ACATCCTTTT
Statistics
Matches: 289, Mismatches: 28, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
43 38 0.13
45 1 0.00
48 45 0.16
49 170 0.59
50 1 0.00
52 34 0.12
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1912994 original size:43 final size:43
Alignment explanation
Indices: 1912885--1913022 Score: 195
Period size: 43 Copynumber: 3.1 Consensus size: 43
1912875 GCACCTTCAT
1912885 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CAC
1912933 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
1912976 CTTTAAGTCCAATATAGCTGGCCCTGAATCAGCATATCGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1913019 CTTT
1 CTTT
1913023 TCCATCTTTA
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
43 46 0.53
48 40 0.47
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1913106 original size:56 final size:52
Alignment explanation
Indices: 1912976--1913114 Score: 152
Period size: 52 Copynumber: 2.6 Consensus size: 52
1912966 ACATTGGCAC
* *
1912976 CTTTAAGTCCAATATAGCTGGCCCTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCCTGAATCAGCACATCGACACCTTTTCCAT
* * * *
1913028 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCCTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
1913084 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCCTGAATCA
1913115 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
52 36 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCCTGAATCAGCACATCGACACCTTTTCCAT
Found at i:1913898 original size:13 final size:13
Alignment explanation
Indices: 1913880--1913904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1913870 CATAAAGTGT
1913880 TGTATCGATACAA
1 TGTATCGATACAA
1913893 TGTATCGATACA
1 TGTATCGATACA
1913905 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1913902 original size:33 final size:33
Alignment explanation
Indices: 1913860--1913926 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1913850 TTCAACGATT
1913860 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1913893 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1913926 T
1 T
1913927 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1913985 original size:13 final size:13
Alignment explanation
Indices: 1913967--1913991 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1913957 ATTACTCAAA
1913967 TGTATCGATACAT
1 TGTATCGATACAT
1913980 TGTATCGATACA
1 TGTATCGATACA
1913992 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1914093 original size:52 final size:52
Alignment explanation
Indices: 1914000--1914127 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1913990 CACTGATCTT
*
1914000 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1914051 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1914103 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1914128 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1918277 original size:51 final size:50
Alignment explanation
Indices: 1918233--1918575 Score: 200
Period size: 51 Copynumber: 6.6 Consensus size: 50
1918223 AATAAGGCAA
* * *
1918233 GGGTTGAAGTGTCCCCGATTATAGAAAATTGGTGTTTT-GAAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTAG-AAATAAAA-CG
* *
1918284 GGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCG
1 GGGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTAGAAATAAAA-CG
* * * * * *
1918335 GGGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTGGAAATAAAGCTA
1 GGGTTGGAGTATCCCCGATTATAGA-AAATTAGTGTTTTAGAAATAAAAC-G
* *** * *
1918386 GGGTTGGAGTATCCCCTCGGAGCTA-ACG-GGGTTAGAGTATCCTCGATGAAAT--AACG
1 GGGTTGGAGTAT-CCC-C-GA-TTATA-GAAAATTAGTGT-T--T-TA-GAAATAAAACG
* * * * *
1918442 AGGTTGGAGTATCCTCGATTGT-GAAAAATTGGTGTTTTTGGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTATAG-AAAATTAGTG-TTTTAGAAATAAAA-CG
* *
1918494 GAGTTGGAGTATCCCCGATTGA-AGGAAAATTGGTGTTTTAGAAATAAAACCG
1 GGGTTGGAGTATCCCCGATT-ATA-GAAAATTAGTGTTTTAGAAATAAAA-CG
*
1918546 GGGTTGTAGTATCCCCGATTAT-GAACAATT
1 GGGTTGGAGTATCCCCGATTATAGAA-AATT
1918576 GAGAAACTTA
Statistics
Matches: 222, Mismatches: 44, Indels: 52
0.70 0.14 0.16
Matches are distributed among these distances:
49 5 0.02
50 6 0.03
51 103 0.46
52 57 0.26
53 18 0.08
54 8 0.04
55 5 0.02
56 12 0.05
57 3 0.01
59 5 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTAGAAATAAAACG
Found at i:1918513 original size:52 final size:51
Alignment explanation
Indices: 1918444--1918576 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
1918434 AAATAACGAG
* * *
1918444 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTAGAAATAAAACCGGA
* * *
1918496 GTTGGAGTATCCCCGATTGAAGGAAAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTG-TGAAAAATTGGTGTTTTAGAAATAAAACCGGA
* * *
1918548 GTTGTAGTATCCCCGATTATGAACAATTG
1 GTTGGAGTATCCCCGATTGTGAAAAATTG
1918577 AGAAACTTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 7 0.10
52 51 0.74
53 11 0.16
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGA
Found at i:1926192 original size:31 final size:31
Alignment explanation
Indices: 1926154--1926215 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
1926144 AGACGATTTG
1926154 GAGATTAAGACAATACATGCTGTACCATACT
1 GAGATTAAGACAATACATGCTGTACCATACT
*
1926185 GAGATTAAGATAATACATGCTGTACCATACT
1 GAGATTAAGACAATACATGCTGTACCATACT
1926216 ACATGGCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (31 bp):
GAGATTAAGACAATACATGCTGTACCATACT
Found at i:1929399 original size:74 final size:75
Alignment explanation
Indices: 1929312--1930040 Score: 458
Period size: 74 Copynumber: 10.0 Consensus size: 75
1929302 GTAGGATGCC
* * *
1929312 TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCA-CATTTATCTTTTTCAGTCCTTAAAAAC
1 TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATTATTTATCTTTTTCAGTCCTTAAAGAG
*
1929376 CAAGATGTTT
66 CAAGATGTCT
* * * * * *
1929386 TTTTCTTTTTCTTCAAAGCCGATACAAGTTAGTGGCATTATTTAAT-TTTTTCATTCCTCAAAGA
1 TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATTATTT-ATCTTTTTCAGTCCTTAAAGA
*
1929450 GCAGGATGTCT
65 GCAAGATGTCT
* * * * * * * **
1929461 TATT-TTTTTATTCAAAGCCCATACAAGCTGCTAGCATTGTTTATCTTTTTTAGTTTTTAAAGAG
1 TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATTATTTATCTTTTTCAGTCCTTAAAGAG
1929525 CAAGATG---
66 CAAGATGTCT
* * *
1929532 TTTT-TTTTTCTTTAAAGGCCACACAAGCTGGTGGCATTATTTATCTTTTTTAGT-CTTCAAAGA
1 TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATTATTTATCTTTTTCAGTCCTT-AAAGA
* * *
1929595 GTAACATG-CC
65 GCAAGATGTCT
* * * * * * *
1929605 TTTTCTTTTCTTTTCAAAGCCCACATAAGCCGGTGGCATTATTTTTCTTTTTCAGTTCTCAATGA
1 TTTTCTTTT-TCTTCAAAGCCCACACAAGCTGGTGGCATTATTTATCTTTTTCAGTCCTTAAAGA
** *
1929670 ATAGGAT-T-T
65 GCAAGATGTCT
* * * * *
1929679 TTTTCTTTTTCTTCAAAGCCTATATAAGCTAGTGGCATCATTTATCCTTTTT-AGGT-CTTAAAG
1 TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATTATTTAT-CTTTTTCA-GTCCTTAAAG
* * *
1929742 AGTAGGATG-CA
64 AGCAAGATGTCT
* * * * * *
1929753 TTTTCTTTTTTCTTTAAAACCC-CTCAAGCTAGTGGC-------ATCCTTTTCAGTCCTCAAAGA
1 TTTTC-TTTTTCTTCAAAGCCCACACAAGCTGGTGGCATTATTTATCTTTTTCAGTCCTTAAAGA
* *
1929810 GC-AG--GACA
65 GCAAGATGTCT
** * * * * * *
1929818 CATT-TTTTT-TTCAAAGCCCACATAAGTTGGTGGCCTCATTTATCTTTTTTAGTCCTCAAAGAG
1 TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATTATTTATCTTTTTCAGTCCTTAAAGAG
* * *
1929881 TAGGATG-CC
66 CAAGATGTCT
* * * * *
1929890 TTTTCTTTTTCTTTAAAACCCACACAAGTTGGTGGCATCATTTATCTTTTTCAGTCCTTAAAGGG
1 TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATTATTTATCTTTTTCAGTCCTTAAAGAG
*
1929955 CAATATG-C-
66 CAAGATGTCT
* * * * * * * * *
1929963 CTTTATTTTCCTTAAAAGCCTACACAAGCCGGTGGCATTGTTTATCTTTTTTAG-CACTCAAAGA
1 TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATTATTTATCTTTTTCAGTC-CTTAAAGA
* *
1930027 GTAGGATGTCT
65 GCAAGATGTCT
1930038 TTT
1 TTT
1930041 CCTACCTCAA
Statistics
Matches: 509, Mismatches: 112, Indels: 67
0.74 0.16 0.10
Matches are distributed among these distances:
62 8 0.02
63 15 0.03
64 1 0.00
65 4 0.01
66 8 0.02
67 11 0.02
70 22 0.04
71 58 0.11
72 4 0.01
73 108 0.21
74 174 0.34
75 92 0.18
76 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (75 bp):
TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATTATTTATCTTTTTCAGTCCTTAAAGAG
CAAGATGTCT
Found at i:1929696 original size:219 final size:220
Alignment explanation
Indices: 1929312--1929789 Score: 470
Period size: 219 Copynumber: 2.2 Consensus size: 220
1929302 GTAGGATGCC
*
1929312 TTTTCTTTTTCTTCAAAGCCCACACAAGCTGGTGGCACATTTATCTTTTTCAGTCCTTAAAAACC
1 TTTT-TTTTTCTTTAAAGCCCACACAAGCTGGTGGCACATTTATCTTTTTCAGTCCTTAAAAACC
* ** * * **
1929377 AAGATGTTTTTTTCTTTTTCTTCAAAGCCGATACAAGTTAGTGGCATTATTTAATTTTTTCATTC
65 AACATGTCCTTTTCTTTTTCTTCAAAGCCCACACAAGCCAGTGGCATTATTTAATTTTTTCATTC
* **
1929442 CTCAAAGAGCAGGATGTCTTATTTTTTTATTCAAAGCCCATACAAGCT-GCTAGCATTGTTTATC
130 CTCAAAGAACAGGATGTCTTATTTTTTTATTCAAAGCCCATACAAGCTAG-TAGCATCATTTATC
* * *
1929506 TTTTTTAGTTTTTAAAGAGCAAGATG-
194 CTTTTTAGGTCTTAAAGAGCAAGATGA
* * * * *
1929532 TTTTTTTTTCTTTAAAGGCCACACAAGCTGGTGGCATTATTTATCTTTTTTAGT-CTTCAAAGAG
1 TTTTTTTTTCTTTAAAGCCCACACAAGCTGGTGGCA-CATTTATCTTTTTCAGTCCTT-AAAAAC
* * * * *
1929596 TAACATG-CCTTTTCTTTTCTTTTCAAAGCCCACATAAGCCGGTGGCATTATTT-TTCTTTTTCA
64 CAACATGTCCTTTTCTTTT-TCTTCAAAGCCCACACAAGCCAGTGGCATTATTTAAT-TTTTTCA
* * * * * * *
1929659 GTT-CTCAATGAATAGGAT-T-TTTTTCTTTTTCTTCAAAGCCTATATAAGCTAGTGGCATCATT
127 -TTCCTCAAAGAACAGGATGTCTTATT-TTTTTATTCAAAGCCCATACAAGCTAGTAGCATCATT
* *
1929721 TATCCTTTTTAGGTCTTAAAGAGTAGGATGCA
190 TATCCTTTTTAGGTCTTAAAGAGCAAGATG-A
* * *
1929753 TTTTCTTTTTTCTTTAAAACCC-CTCAAGCTAGTGGCA
1 -TTT-TTTTTTCTTTAAAGCCCACACAAGCTGGTGGCA
1929790 TCCTTTTCAG
Statistics
Matches: 210, Mismatches: 37, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
218 4 0.02
219 98 0.47
220 75 0.36
221 2 0.01
222 16 0.08
223 15 0.07
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (220 bp):
TTTTTTTTTCTTTAAAGCCCACACAAGCTGGTGGCACATTTATCTTTTTCAGTCCTTAAAAACCA
ACATGTCCTTTTCTTTTTCTTCAAAGCCCACACAAGCCAGTGGCATTATTTAATTTTTTCATTCC
TCAAAGAACAGGATGTCTTATTTTTTTATTCAAAGCCCATACAAGCTAGTAGCATCATTTATCCT
TTTTAGGTCTTAAAGAGCAAGATGA
Found at i:1935562 original size:58 final size:58
Alignment explanation
Indices: 1935467--1935990 Score: 396
Period size: 58 Copynumber: 9.1 Consensus size: 58
1935457 AATTTATAAC
** ** ** * * * *
1935467 CATGATCTAGGGACTTGGATGTAATTTTGTGAATTTTGATGCCATTTAGGTCAATTTC
1 CATGATCTAAAGACTTTTATGTAATTTCATGCATTTTGATGCCATTTAGGTTATTTTT
* * * * *
1935525 CTTGGTCTAAAGACTTTTATGTCATTTCATGCATTTTGATGTCATTTAGGTTATTTTC
1 CATGATCTAAAGACTTTTATGTAATTTCATGCATTTTGATGCCATTTAGGTTATTTTT
* * ** * **
1935583 CATCAT-TAAGGGACTTTTATGTAATTTTTTGAATTTTGATGCCATTTAACTTATTTTT
1 CATGATCTAA-AGACTTTTATGTAATTTCATGCATTTTGATGCCATTTAGGTTATTTTT
* * * * *
1935641 CATAATCTAAAAACTTTTATGTCATTTCATGCATTTTGATGTCATTTAGGTTATTTTC
1 CATGATCTAAAGACTTTTATGTAATTTCATGCATTTTGATGCCATTTAGGTTATTTTT
* * ** * *
1935699 CATCATC-AAGGGACTTTTATGTAATTTTGTGAATTTTGATGCCATTTAAGTTATTTTT
1 CATGATCTAA-AGACTTTTATGTAATTTCATGCATTTTGATGCCATTTAGGTTATTTTT
* * * * * *
1935757 CATAATCTAAAGACTTTTATGTCATTTCATACATTTTGATACCATTTACGTCA-TTTT
1 CATGATCTAAAGACTTTTATGTAATTTCATGCATTTTGATGCCATTTAGGTTATTTTT
* * * * * * * *
1935814 CTATGATTTGAGGAC--TTATGTTATTT-ATGCATTTGGATGTCATTTTGGTCATTTTT
1 C-ATGATCTAAAGACTTTTATGTAATTTCATGCATTTTGATGCCATTTAGGTTATTTTT
* * ** * ** *
1935870 CATGTTCTAGAGACTTTTATGTAATTTCATATATATTGGGGTCATTTAGGTTATTTTT
1 CATGATCTAAAGACTTTTATGTAATTTCATGCATTTTGATGCCATTTAGGTTATTTTT
* * * * ** * *
1935928 CATGATCTACAGACCTTTATGTAATTTCGTACATTTTAGA-GATATTTAAGTCATTTTT
1 CATGATCTAAAGACTTTTATGTAATTTCATGCATTTT-GATGCCATTTAGGTTATTTTT
1935986 CATGA
1 CATGA
1935991 CTTAAGAATT
Statistics
Matches: 364, Mismatches: 92, Indels: 20
0.76 0.19 0.04
Matches are distributed among these distances:
55 27 0.07
56 15 0.04
57 20 0.05
58 296 0.81
59 6 0.02
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (58 bp):
CATGATCTAAAGACTTTTATGTAATTTCATGCATTTTGATGCCATTTAGGTTATTTTT
Found at i:1935616 original size:116 final size:116
Alignment explanation
Indices: 1935475--1935988 Score: 531
Period size: 116 Copynumber: 4.5 Consensus size: 116
1935465 ACCATGATCT
** * * * * **
1935475 AGGGACTTGGATGTAATTTTGTGAATTTTGATGCCATTTAGGTCAATTTCCTTGGTCTAAAGACT
1 AGGGACTTTTATGTAATTTTGTGAATTTTGATGCCATTTAAGTCATTTTTCATAATCTAAAGACT
*
1935540 TTTATGTCATTTCATGCATTTTGATGTCATTTAGGTTATTTTCCATCATTA
66 TTTATGTCATTTCATACATTTTGATGTCATTTAGGTTATTTTCCATCATTA
* * * *
1935591 AGGGACTTTTATGTAATTTTTTGAATTTTGATGCCATTTAACTTATTTTTCATAATCTAAAAACT
1 AGGGACTTTTATGTAATTTTGTGAATTTTGATGCCATTTAAGTCATTTTTCATAATCTAAAGACT
* *
1935656 TTTATGTCATTTCATGCATTTTGATGTCATTTAGGTTATTTTCCATCATCA
66 TTTATGTCATTTCATACATTTTGATGTCATTTAGGTTATTTTCCATCATTA
*
1935707 AGGGACTTTTATGTAATTTTGTGAATTTTGATGCCATTTAAGTTATTTTTCATAATCTAAAGACT
1 AGGGACTTTTATGTAATTTTGTGAATTTTGATGCCATTTAAGTCATTTTTCATAATCTAAAGACT
** * * * *
1935772 TTTATGTCATTTCATACATTTTGATACCATTTACGTCATTTTCTATGATT-
66 TTTATGTCATTTCATACATTTTGATGTCATTTAGGTTATTTTCCATCATTA
* * * * * * ** ** *
1935822 TGAGGAC--TTATGTTA-TTTATGCATTTGGATGTCATTTTGGTCATTTTTCATGTTCTAGAGAC
1 AG-GGACTTTTATGTAATTTTGTGAATTTTGATGCCATTTAAGTCATTTTTCATAATCTAAAGAC
* * * ** * *
1935884 TTTTATGTAATTTCATATATATTGGGGTCATTTAGGTTATTTTTCATGATCTA
65 TTTTATGTCATTTCATACATTTTGATGTCATTTAGGTTATTTTCCATCAT-TA
* * **
1935937 CA--GACCTTTATGTAATTTCGT-ACATTTTAGA-GATATTTAAGTCATTTTTCAT
1 -AGGGACTTTTATGTAATTTTGTGA-ATTTT-GATGCCATTTAAGTCATTTTTCAT
1935989 GACTTAAGAA
Statistics
Matches: 332, Mismatches: 57, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
113 79 0.24
114 8 0.02
115 8 0.02
116 235 0.71
117 2 0.01
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (116 bp):
AGGGACTTTTATGTAATTTTGTGAATTTTGATGCCATTTAAGTCATTTTTCATAATCTAAAGACT
TTTATGTCATTTCATACATTTTGATGTCATTTAGGTTATTTTCCATCATTA
Found at i:1935983 original size:171 final size:172
Alignment explanation
Indices: 1935657--1935984 Score: 401
Period size: 171 Copynumber: 1.9 Consensus size: 172
1935647 CTAAAAACTT
* * *
1935657 TTATGTCATTTCATGCATTTTGATGTCATTTAGGTTATTTTCCATCATCAAGGGACTTTTATGTA
1 TTATGTCATTTCATGCATTTGGATGTCATTTAGGTCATTTTCCATCATCAAGAGACTTTTATGTA
** * * * *
1935722 ATTTTGTGAATTTTGATGCCATTTAAGTTATTTTTCATAATCTAAAGACTTTTATGTCATTTCAT
66 ATTTCATGAATATTGAGGCCATTTAAGTTATTTTTCATAATCTAAAGACCTTTATGTAATTTCAT
* *
1935787 ACATTTTGATACCATTTACGTCATTTTCTATGATTTGAGGAC
131 ACATTTTGAGACCATTTAAGTCATTTTCTATGATTTGAGGAC
* * * ** *
1935829 TTATGTTATTT-ATGCATTTGGATGTCATTTTGGTCATTTTTCATGTTCTAGAGACTTTTATGTA
1 TTATGTCATTTCATGCATTTGGATGTCATTTAGGTCATTTTCCATCATCAAGAGACTTTTATGTA
* * * * * *
1935893 ATTTCAT-ATATATTGGGGTCATTTAGGTTATTTTTCATGATCTACAGACCTTTATGTAATTTCG
66 ATTTCATGA-ATATTGAGGCCATTTAAGTTATTTTTCATAATCTAAAGACCTTTATGTAATTTCA
*
1935957 TACATTTTAGAGA-TATTTAAGTCATTTT
130 TACATTTT-GAGACCATTTAAGTCATTTT
1935985 TCATGACTTA
Statistics
Matches: 130, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
170 1 0.01
171 116 0.89
172 13 0.10
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (172 bp):
TTATGTCATTTCATGCATTTGGATGTCATTTAGGTCATTTTCCATCATCAAGAGACTTTTATGTA
ATTTCATGAATATTGAGGCCATTTAAGTTATTTTTCATAATCTAAAGACCTTTATGTAATTTCAT
ACATTTTGAGACCATTTAAGTCATTTTCTATGATTTGAGGAC
Found at i:1940008 original size:16 final size:15
Alignment explanation
Indices: 1939983--1940013 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1939973 ATTTATATTT
1939983 AATTAAAATAATTAA
1 AATTAAAATAATTAA
1939998 AATTGAAAATAATTAA
1 AATT-AAAATAATTAA
1940014 TCAATTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
AATTAAAATAATTAA
Found at i:1940058 original size:13 final size:13
Alignment explanation
Indices: 1940040--1940064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1940030 TAATTTTTTG
1940040 TTTTAAATTTAAT
1 TTTTAAATTTAAT
1940053 TTTTAAATTTAA
1 TTTTAAATTTAA
1940065 GTATGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATTTAAT
Found at i:1941177 original size:32 final size:33
Alignment explanation
Indices: 1941112--1941191 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 33
1941102 CACACCGAGA
* * *
1941112 TGTATCGATACATTATGCTTTGTGTCGATATAT
1 TGTATCGATACATGATGCATTGTATCGATATAT
*
1941145 TGTATCGATACATGCT-CATTGTATCGATATAT
1 TGTATCGATACATGATGCATTGTATCGATATAT
1941177 TGTATCGATACATGA
1 TGTATCGATACATGA
1941192 AACTGCAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 28 0.67
33 14 0.33
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATGATGCATTGTATCGATATAT
Found at i:1941180 original size:13 final size:13
Alignment explanation
Indices: 1941162--1941186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1941152 ATACATGCTC
1941162 ATTGTATCGATAT
1 ATTGTATCGATAT
1941175 ATTGTATCGATA
1 ATTGTATCGATA
1941187 CATGAAACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGTATCGATAT
Found at i:1943100 original size:13 final size:13
Alignment explanation
Indices: 1943082--1943107 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1943072 TACACCAAGT
1943082 ATGTATCGATACA
1 ATGTATCGATACA
1943095 ATGTATCGATACA
1 ATGTATCGATACA
1943108 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1943126 original size:34 final size:32
Alignment explanation
Indices: 1943064--1943128 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1943054 TAGCCAAACT
**
1943064 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
1943096 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
1943129 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:1946275 original size:13 final size:13
Alignment explanation
Indices: 1946257--1946281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1946247 CAATTCATCA
1946257 TGTATCGATACAT
1 TGTATCGATACAT
1946270 TGTATCGATACA
1 TGTATCGATACA
1946282 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1946292 original size:33 final size:32
Alignment explanation
Indices: 1946237--1946301 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
1946227 TTAGAAGCAA
1946237 TGTATCGATACAATTCATCATGTATCGATACAT
1 TGTATCGATACAATTCA-CATGTATCGATACAT
*
1946270 TGTATCGATACAATGTGC-CATGTATTGATACA
1 TGTATCGATACAAT-T-CACATGTATCGATACA
1946302 AATAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATTCACATGTATCGATACAT
Found at i:1947041 original size:27 final size:28
Alignment explanation
Indices: 1946999--1947052 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
1946989 TAAAAAGATT
1946999 AAAGATTTTCTCCCCCTTGATAAAAATA
1 AAAGATTTTCTCCCCCTTGATAAAAATA
1947027 AAAGATTTTCT-CCCCTTGATAAAAAT
1 AAAGATTTTCTCCCCCTTGATAAAAAT
1947053 TTATTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (28 bp):
AAAGATTTTCTCCCCCTTGATAAAAATA
Found at i:1948778 original size:20 final size:22
Alignment explanation
Indices: 1948753--1948792 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1948743 TTTGTTGAAG
1948753 ATTTTG-A-TGAAAAATGAGGC
1 ATTTTGAAGTGAAAAATGAGGC
1948773 ATTTTGAAGTGAAAAATGAG
1 ATTTTGAAGTGAAAAATGAG
1948793 AAATTTGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (22 bp):
ATTTTGAAGTGAAAAATGAGGC
Found at i:1948798 original size:22 final size:22
Alignment explanation
Indices: 1948753--1948802 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1948743 TTTGTTGAAG
**
1948753 ATTTTG-A-TGAAAAATGAGGC
1 ATTTTGAAGTGAAAAATGAGAA
1948773 ATTTTGAAGTGAAAAATGAGAA
1 ATTTTGAAGTGAAAAATGAGAA
1948795 A-TTTGAAG
1 ATTTTGAAG
1948803 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 8 0.31
22 12 0.46
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.30
Consensus pattern (22 bp):
ATTTTGAAGTGAAAAATGAGAA
Found at i:1954887 original size:20 final size:20
Alignment explanation
Indices: 1954862--1954919 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 20
1954852 CTGCCAGTTT
*
1954862 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
*
1954882 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
1954901 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
1954920 TCGATACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 15 0.44
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:1954921 original size:13 final size:13
Alignment explanation
Indices: 1954903--1954927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1954893 ACAATGAACA
1954903 TGTATCGATACAT
1 TGTATCGATACAT
1954916 TGTATCGATACA
1 TGTATCGATACA
1954928 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1954944 original size:33 final size:32
Alignment explanation
Indices: 1954884--1954948 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1954874 CAATTGTCCA
*
1954884 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
1954916 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
1954949 CTAGGTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:1960639 original size:99 final size:99
Alignment explanation
Indices: 1960468--1960666 Score: 371
Period size: 99 Copynumber: 2.0 Consensus size: 99
1960458 AAAAAGGGAG
* *
1960468 AGATTGTTAGAATCTTGGTTTTGATATAACAAAATACGAATAAAACTGAAAAATACTTTGAAAAT
1 AGATTATTAGAATCTTGATTTTGATATAACAAAATACGAATAAAACTGAAAAATACTTTGAAAAT
1960533 CGTAATAAGTTTTATTCATTTAAAAATACTCTAA
66 CGTAATAAGTTTTATTCATTTAAAAATACTCTAA
*
1960567 AGATTATTAGAATCTTGATTTTGATATAACAAAATATGAATAAAACTGAAAAATACTTTGAAAAT
1 AGATTATTAGAATCTTGATTTTGATATAACAAAATACGAATAAAACTGAAAAATACTTTGAAAAT
1960632 CGTAATAAGTTTTATTCATTTAAAAATACTCTAA
66 CGTAATAAGTTTTATTCATTTAAAAATACTCTAA
1960666 A
1 A
1960667 AACCTTGTTC
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.36
Consensus pattern (99 bp):
AGATTATTAGAATCTTGATTTTGATATAACAAAATACGAATAAAACTGAAAAATACTTTGAAAAT
CGTAATAAGTTTTATTCATTTAAAAATACTCTAA
Found at i:1960913 original size:19 final size:19
Alignment explanation
Indices: 1960889--1960944 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1960879 TGTATTGATA
1960889 CATTGTATCGATACATGCT
1 CATTGTATCGATACATGCT
*
1960908 CATTGTATCGATACATACT
1 CATTGTATCGATACATGCT
*
1960927 CAGTTGTATTGATACATG
1 CA-TTGTATCGATACATG
1960945 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 20 0.61
20 13 0.39
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:1960991 original size:13 final size:13
Alignment explanation
Indices: 1960973--1961011 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1960963 TTAAGTGAAA
1960973 TGTATCGATACAT
1 TGTATCGATACAT
1960986 TGTATCGATACAT
1 TGTATCGATACAT
*
1960999 TGTATCAATACAT
1 TGTATCGATACAT
1961012 GAAGAATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1968503 original size:18 final size:18
Alignment explanation
Indices: 1968464--1968514 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
1968454 AATTTTATAA
*
1968464 TTATTGA-ATAATTATTT
1 TTATTGAGATAAATATTT
*
1968481 TTATT-AGATGAATATTAT
1 TTATTGAGATAAATATT-T
1968499 TTATTGAGATAAATAT
1 TTATTGAGATAAATAT
1968515 GAATTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 1 0.04
17 12 0.43
18 6 0.21
19 9 0.32
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (18 bp):
TTATTGAGATAAATATTT
Found at i:1968897 original size:188 final size:188
Alignment explanation
Indices: 1968580--1968958 Score: 677
Period size: 188 Copynumber: 2.0 Consensus size: 188
1968570 CCTATTGCAC
1968580 CTATAGCCCAGTTTGATGGACCAAAGTAAGTTAGGCCAAATTTTAGGATGAGAAATCCAACCAAG
1 CTATAGCCCAGTTTGATGGACCAAAGTAAGTTAGGCCAAATTTTAGGATGAGAAATCCAACCAAG
1968645 GCTAAAGGAAAAGGCTAGGCAATTAATTTACTTAAAACAAGGATGAAAAAGTTTTACTTGTTTTG
66 GCTAAAGGAAAAGGCTAGGCAATTAATTTACTTAAAACAAGGATGAAAAAGTTTTACTTGTTTTG
* * *
1968710 AGAATTTTAATTAGGCTTAAACATTTCCATTCTAAATCCAACTAGGAGTTGGATTGAG
131 AGAATTTTAATTAGGCTAAAACATTTCCATTCTAAATCCAACTAAGAGTTGGATTAAG
** *
1968768 CTATAGCCTGGTTTGATGGACCAAAGTAAGTTAGGCCAAATTTTAGGATGGGAAATCCAACCAAG
1 CTATAGCCCAGTTTGATGGACCAAAGTAAGTTAGGCCAAATTTTAGGATGAGAAATCCAACCAAG
* * *
1968833 GTTAGAGGAAAAGGCTGGGCAATTAATTTACTTAAAACAAGGATGAAAAAGTTTTACTTGTTTTG
66 GCTAAAGGAAAAGGCTAGGCAATTAATTTACTTAAAACAAGGATGAAAAAGTTTTACTTGTTTTG
1968898 AGAATTTTAATTAGGCTAAAACATTTCCATTCTAAATCCAACTAAGAGTTGGATTAAG
131 AGAATTTTAATTAGGCTAAAACATTTCCATTCTAAATCCAACTAAGAGTTGGATTAAG
1968956 CTA
1 CTA
1968959 ATATATAAAG
Statistics
Matches: 182, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
188 182 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (188 bp):
CTATAGCCCAGTTTGATGGACCAAAGTAAGTTAGGCCAAATTTTAGGATGAGAAATCCAACCAAG
GCTAAAGGAAAAGGCTAGGCAATTAATTTACTTAAAACAAGGATGAAAAAGTTTTACTTGTTTTG
AGAATTTTAATTAGGCTAAAACATTTCCATTCTAAATCCAACTAAGAGTTGGATTAAG
Found at i:1971180 original size:33 final size:33
Alignment explanation
Indices: 1971112--1971180 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1971102 CCGTTACAAG
** *
1971112 CAATGTATCGATACATTTCATTATGTATTGATA
1 CAATGTATCGATACATTTCACCATGTATCGATA
*
1971145 CAATGTATCGATACATTGT-ACCATGTATCGTTA
1 CAATGTATCGATACATT-TCACCATGTATCGATA
1971178 CAA
1 CAA
1971181 ATAGTGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (33 bp):
CAATGTATCGATACATTTCACCATGTATCGATA
Found at i:1971253 original size:19 final size:19
Alignment explanation
Indices: 1971209--1971264 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1971199 CTGCTAATTT
**
1971209 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1971229 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1971248 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1971265 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1971267 original size:13 final size:13
Alignment explanation
Indices: 1971249--1971275 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1971239 TACAATGAAC
1971249 ATGTATCGATACA
1 ATGTATCGATACA
1971262 ATGTATCGATACA
1 ATGTATCGATACA
1971275 A
1 A
1971276 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1971909 original size:21 final size:23
Alignment explanation
Indices: 1971876--1971917 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1971866 AGATAAACAT
1971876 ATTTCTCCCCCTTTT-TCAAAGC
1 ATTTCTCCCCCTTTTGTCAAAGC
1971898 ATTTCT-CCCCTTTTGTCAAA
1 ATTTCTCCCCCTTTTGTCAAA
1971918 TCAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.19, C:0.33, G:0.05, T:0.43
Consensus pattern (23 bp):
ATTTCTCCCCCTTTTGTCAAAGC
Found at i:1979985 original size:20 final size:20
Alignment explanation
Indices: 1979960--1980009 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1979950 ACAAGCAATA
* **
1979960 TATCGATACATTTCATTATG
1 TATCGATACATTGCACCATG
1979980 TATCGATACATTGCACCATG
1 TATCGATACATTGCACCATG
1980000 TATCGATACA
1 TATCGATACA
1980010 AATAGTGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
TATCGATACATTGCACCATG
Found at i:1980082 original size:17 final size:18
Alignment explanation
Indices: 1980040--1980092 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
1980030 TGCCAATTTC
*
1980040 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAA-TG-CA
1980060 ATGTATCGATACAATG-A
1 ATGTATCGATACAATGCA
* *
1980077 ATGTATTGATATAATG
1 ATGTATCGATACAATG
1980093 TATTGATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 14 0.47
19 2 0.07
20 14 0.47
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (18 bp):
ATGTATCGATACAATGCA
Found at i:1980094 original size:13 final size:13
Alignment explanation
Indices: 1980076--1980100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1980066 CGATACAATG
1980076 AATGTATTGATAT
1 AATGTATTGATAT
1980089 AATGTATTGATA
1 AATGTATTGATA
1980101 CAAAGCATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
AATGTATTGATAT
Found at i:1981434 original size:29 final size:29
Alignment explanation
Indices: 1981401--1981474 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
1981391 CATTATTCAT
* *
1981401 TGTATCGATACATTCTACAAAACCCAAAA
1 TGTATTGATACATTCTACAAAAACCAAAA
* * * *
1981430 TGTATTGATACATCCTAGAAAAACCTAGA
1 TGTATTGATACATTCTACAAAAACCAAAA
*
1981459 TGTATTGATACCTTCT
1 TGTATTGATACATTCT
1981475 TCATCTGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (29 bp):
TGTATTGATACATTCTACAAAAACCAAAA
Found at i:1985207 original size:20 final size:20
Alignment explanation
Indices: 1985181--1985235 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1985171 AAAAAGACAG
*
1985181 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * * *
1985201 CATGTATCAATACGTTGAAA
1 AATGTATCGATACATTCAAA
1985221 AATGTATCGATACAT
1 AATGTATCGATACAT
1985236 CTAGGTAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1990141 original size:17 final size:17
Alignment explanation
Indices: 1990119--1990152 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1990109 GGGGACAAAT
1990119 TTTTCTGAGCTTTTCGA
1 TTTTCTGAGCTTTTCGA
1990136 TTTTCTGAGCTTTTCGA
1 TTTTCTGAGCTTTTCGA
1990153 CTAATACGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (17 bp):
TTTTCTGAGCTTTTCGA
Found at i:1992848 original size:130 final size:131
Alignment explanation
Indices: 1992695--1992931 Score: 307
Period size: 131 Copynumber: 1.8 Consensus size: 131
1992685 TAATCTCACG
* ** * ** * *
1992695 GATACTTCAACCCCGGTTTTATTTCCAAAACA-TTAATTTTTCATAATCGGGGATACTCCAATCC
1 GATACTCCAACCCCAATTTTATTTACAAAACACCAAACTTTTCACAATCGGGGATACTCCAATCC
*** * *
1992759 TC-TTATTTTTGAGGGGATACTCCAATCCTGGCTTTATTTCTAAAATATTGATTTCTCATAATCA
66 -CGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCATAATCA
1992823 GA
130 GA
* *
1992825 GATACTCCAACCCCAATTTTATTTATAAAACACCAAACTTTTCACAATCGGGGATACTCTAATCC
1 GATACTCCAACCCCAATTTTATTTACAAAACACCAAACTTTTCACAATCGGGGATACTCCAATCC
*
1992890 CGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTTCTA
66 CGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTCTA
1992932 TATAATTTTC
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
130 28 0.31
131 61 0.69
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (131 bp):
GATACTCCAACCCCAATTTTATTTACAAAACACCAAACTTTTCACAATCGGGGATACTCCAATCC
CGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCATAATCAG
A
Found at i:1993412 original size:15 final size:16
Alignment explanation
Indices: 1993389--1993421 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1993379 AAGTTCAACC
1993389 AAAACAAAAAA-GAAA
1 AAAACAAAAAAGGAAA
*
1993404 AAAAGAAAAAAGGAAA
1 AAAACAAAAAAGGAAA
1993420 AA
1 AA
1993422 TGTGGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAAGGAAA
Found at i:1998368 original size:19 final size:18
Alignment explanation
Indices: 1998322--1998371 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
1998312 ATTTGAAGGG
*
1998322 TAAATTAAAAATATATAT
1 TAAATTAAAAATATAAAT
*
1998340 TAAATAAAAAATATTACAAT
1 TAAATTAAAAATA-TA-AAT
1998360 T-AATTAAAAATA
1 TAAATTAAAAATA
1998372 ACATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.44
19 12 0.44
20 3 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAATTAAAAATATAAAT
Found at i:1999498 original size:84 final size:86
Alignment explanation
Indices: 1999369--1999540 Score: 224
Period size: 85 Copynumber: 2.0 Consensus size: 86
1999359 GAGGAGATAG
* * *
1999369 ATGAAGCTTTTCGGCGCGTCCCGGTAATATAGTTGTTTCACTTTGGTTCATTATC-TTGACATTT
1 ATGAAGATTTTCGGCGCGTCCCGGTAATATAGTTGTTTCACTTTGGTTCATTATCTTTAAAATTT
*
1999433 TATTTCTGTTGACACGTGTTT
66 TAATTCTGTTGACACGTGTTT
* * * *
1999454 ATGAAGATTTTCGGC-TGTGCCTGTAATATAGTT-TTTGCATTTTGGTTCATTATCTTTAAAATT
1 ATGAAGATTTTCGGCGCGTCCCGGTAATATAGTTGTTT-CACTTTGGTTCATTATCTTTAAAATT
* *
1999517 TTAATTCTGTTGATATGTGTTT
65 TTAATTCTGTTGACACGTGTTT
1999539 AT
1 AT
1999541 TAAGCTTTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
83 3 0.04
84 31 0.41
85 41 0.55
ACGTcount: A:0.20, C:0.13, G:0.19, T:0.48
Consensus pattern (86 bp):
ATGAAGATTTTCGGCGCGTCCCGGTAATATAGTTGTTTCACTTTGGTTCATTATCTTTAAAATTT
TAATTCTGTTGACACGTGTTT
Found at i:2005346 original size:2 final size:2
Alignment explanation
Indices: 2005339--2005366 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2005329 CATTTGATTT
2005339 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2005367 CACAATTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2006485 original size:19 final size:19
Alignment explanation
Indices: 2006444--2006486 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
2006434 TGATAATCCC
*
2006444 CATTAACAACCACAGAATC
1 CATTAACAACCACAGAATA
* * *
2006463 CATTAACAATCACCGAGTA
1 CATTAACAACCACAGAATA
2006482 CATTA
1 CATTA
2006487 GAGACATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.07, T:0.21
Consensus pattern (19 bp):
CATTAACAACCACAGAATA
Found at i:2007353 original size:32 final size:33
Alignment explanation
Indices: 2007308--2007398 Score: 107
Period size: 32 Copynumber: 2.8 Consensus size: 33
2007298 CAACACTATC
2007308 TTTC-AAGGCTAAGATAGAAACCTCCCTATC-T
1 TTTCAAAGGCTAAGATAGAAACCTCCCTATCTT
** *
2007339 TTTCACGGGCTAAGATAGAACCTTTCTCCCTATCTT
1 TTTCAAAGGCTAAGATAGAAAC---CTCCCTATCTT
2007375 TTTCAAAGGCTAAGATAG-AACCTC
1 TTTCAAAGGCTAAGATAGAAACCTC
2007399 ACAATCACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
31 4 0.08
32 17 0.35
35 11 0.22
36 17 0.35
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (33 bp):
TTTCAAAGGCTAAGATAGAAACCTCCCTATCTT
Found at i:2007386 original size:36 final size:33
Alignment explanation
Indices: 2007303--2007398 Score: 117
Period size: 36 Copynumber: 2.9 Consensus size: 33
2007293 CCTTACAACA
*
2007303 CTATC-TTTC-AAGGCTAAGATAGAAAC-CTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTCC
**
2007333 CTATCTTTTCACGGGCTAAGATAGAACCTTTCTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACC--TCTCC
2007368 CTATCTTTTTCAAAGGCTAAGATAGAACCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTC
2007399 ACAATCACTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 14 0.25
34 2 0.04
35 9 0.16
36 21 0.38
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (33 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCC
Found at i:2007873 original size:13 final size:13
Alignment explanation
Indices: 2007855--2007881 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2007845 TACTATTCAT
2007855 ACTGTATCGATAC
1 ACTGTATCGATAC
2007868 ACTGTATCGATAC
1 ACTGTATCGATAC
2007881 A
1 A
2007882 TGAACAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (13 bp):
ACTGTATCGATAC
Found at i:2011360 original size:21 final size:21
Alignment explanation
Indices: 2011336--2011391 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
2011326 TTTATTAGTT
*
2011336 AACTCA-TCATTTTCATTTTGC
1 AACTCATTCATTTTC-TTTTCC
2011357 AACTCATTTC-TTTTCTTTTCC
1 AACTCA-TTCATTTTCTTTTCC
2011378 AACTCATTCATTTT
1 AACTCATTCATTTT
2011392 TTCCTTTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 3 0.10
21 21 0.68
22 5 0.16
23 2 0.06
ACGTcount: A:0.21, C:0.25, G:0.02, T:0.52
Consensus pattern (21 bp):
AACTCATTCATTTTCTTTTCC
Found at i:2018262 original size:1 final size:1
Alignment explanation
Indices: 2018256--2018318 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
2018246 CCTTCGTACC
* * * * * * * *
2018256 AAAAAAAACAAAAAAAGAAAAAAAACAAAGAAAAAAAAACAAAAACAAAAAAACAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2018319 GAAGTCCAGA
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:2018290 original size:14 final size:13
Alignment explanation
Indices: 2018255--2018318 Score: 76
Period size: 14 Copynumber: 4.8 Consensus size: 13
2018245 TCCTTCGTAC
2018255 CAAAAAAAACAAAA
1 CAAAAAAAA-AAAA
*
2018269 -AAAGAAAAAAAA
1 CAAAAAAAAAAAA
2018281 CAAAGAAAAAAAAA
1 CAAA-AAAAAAAAA
2018295 CAAAAACAAAAAAA
1 CAAAAA-AAAAAAA
*
2018309 CAAACAAAAA
1 CAAAAAAAAA
2018319 GAAGTCCAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.09
13 16 0.36
14 24 0.55
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:2019599 original size:30 final size:28
Alignment explanation
Indices: 2019557--2020076 Score: 560
Period size: 28 Copynumber: 17.7 Consensus size: 28
2019547 TCATCTCTTG
*
2019557 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
2019585 AAAGCCCACACAAGTCGGTGGCAACTCTTTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TCCTTTC
* *
2019617 AAAGCCCACAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
2019645 AAAGCCCATACAAGTCGGTGGCAACTCCTTTC
1 AAAGCCC--ACAAGTCAGTGGC-A-TCCTTTC
2019677 AAAGCCCACAAGTCAGTGGCAT-CTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTC
2019705 AAAGCTCACACAAGTC-GATGGCAACTCCTTTC
1 AAAGC-C-CACAAGTCAG-TGGC-A-TCCTTTC
* *
2019737 AAAGCCCATAAGTCAGTGGCATCTCTTTA
1 AAAGCCCACAAGTCAGTGGCATC-CTTTC
*
2019766 AAAGACCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
2019794 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
2019822 AAAGCCCACAAGTTAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
2019850 AAAGCCTACAAGTCAATGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
2019878 AAAGCTCACAAGTCAGTGGCATACCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT--CCTTTC
* * *
2019908 AAAGCCTACACAAATCAGTGGCACCCTTCC
1 AAAGCC--CACAAGTCAGTGGCATCCTTTC
2019938 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
* * *
2019966 AAAGCTCACAAGTCAGTGGTACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
2019994 AAAGCCCACAAGTCAGTGGCATACCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT--CCTTTC
2020024 AAAGCCCACACAAGTCAGTGGCATACCCTTTC
1 AAAG-CC-CACAAGTCAGTGGCAT--CCTTTC
* *
2020056 AAAACCTACACAAGTCGGTGG
1 AAAGCC--CACAAGTCAGTGG
2020077 TAACTCTTTT
Statistics
Matches: 429, Mismatches: 35, Indels: 52
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.01
28 188 0.44
29 34 0.08
30 103 0.24
31 11 0.03
32 87 0.20
33 2 0.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:2019625 original size:60 final size:58
Alignment explanation
Indices: 2019557--2020115 Score: 600
Period size: 60 Copynumber: 9.5 Consensus size: 58
2019547 TCATCTCTTG
* * *
2019557 AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGCAACTCCTTTC
* * *
2019617 AAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCATACAAGTCGGTGGCAACTCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCC--ACAAGTCAGTGGCAACTCCTTTC
2019677 AAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAGCTCACACAAGTC-GATGGCAACTCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGC-C-CACAAGTCAG-TGGCAACTCCTTTC
* * *
2019737 AAAGCCCATAAGTCAGTGGCATCTCTTTAAAAGACCACAAGTCAGTGGC-A-TCCTTTC
1 AAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCAACTCCTTTC
*
2019794 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGC-AC-CCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACTCCTTTC
* * * *
2019850 AAAGCCTACAAGTCAATGGCACCCTTTCAAAGCTCACAAGTCAGTGGCATAC-CCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-ACTCCTTTC
* * * *
2019908 AAAGCCTACACAAATCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGC-AC-CTTTTC
1 AAAGCC--CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACTCCTTTC
* * *
2019966 AAAGCTCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGTCAGTGGCATAC-CCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-ACTCCTTTC
* * * *
2020024 AAAGCCCACACAAGTCAGTGGCATACCCTTTCAAAACCTACACAAGTCGGTGGTAACTCTTTTC
1 AAAG-CC-CACAAGTCAGTGGCAT--CCTTTCAAAGCC--CACAAGTCAGTGGCAACTCCTTTC
* * *
2020088 AATGCCTACACAAGTTAGTAGCA-CCTTT
1 AAAGCC--CACAAGTCAGTGGCATCCTTT
2020116 TTATAAAACA
Statistics
Matches: 438, Mismatches: 37, Indels: 47
0.84 0.07 0.09
Matches are distributed among these distances:
56 111 0.25
57 29 0.07
58 39 0.09
59 17 0.04
60 177 0.40
61 12 0.03
62 14 0.03
63 4 0.01
64 35 0.08
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (58 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACTCCTTTC
Found at i:2019945 original size:116 final size:117
Alignment explanation
Indices: 2019557--2020112 Score: 612
Period size: 116 Copynumber: 4.7 Consensus size: 117
2019547 TCATCTCTTG
* * * *
2019557 AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CCACACAAGTCAGTGGCAACTCCTTTCAAAGC
* * * *
2019622 CCACAAGTTAGTGGCATCTTTTCAAAGCCCATACAAGTCGGTGGCA-ACTCCTTTC
65 CCACAAGTCAGTGGCACCCTTTCAAAGCCC--ACAAGTCAGTGGCATAC-CCTTTC
*
2019677 AAAGCCCACAAGTCAGTGGCA-TCTCTTCAAAGCTCACACAAGTC-GATGGCAACTCCTTTCAAA
1 AAAGCCCACAAGTCAGTGGCACCCT-TTCAAAGC-CACACAAGTCAG-TGGCAACTCCTTTCAAA
* * * *
2019740 GCCCATAAGTCAGTGGCATCTCTTTAAAAGACCACAAGTCAGTGGCAT--CCTTTC
63 GCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTC
* *
2019794 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC-CACAAGTTAGTGGC-AC-CCTTTCAAAGCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCACACAAGTCAGTGGCAACTCCTTTCAAAGCC
* * *
2019856 TACAAGTCAATGGCACCCTTTCAAAGCTCACAAGTCAGTGGCATACCCTTTC
66 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTC
* * *
2019908 AAAGCCTACACAAATCAGTGGCACCCTTCCAAAGCC-CACAAGTCAGTGGC-AC-CTTTTCAAAG
1 AAAGCC--CACAAGTCAGTGGCACCCTTTCAAAGCCACACAAGTCAGTGGCAACTCCTTTCAAAG
* *
2019970 CTCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTC
64 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTC
* * * *
2020024 AAAGCCCACACAAGTCAGTGGCATACCCTTTCAAAACCTACACAAGTCGGTGGTAACTCTTTTCA
1 AAAG-CC-CACAAGTCAGTGGC--ACCCTTTCAAAGCC-ACACAAGTCAGTGGCAACTCCTTTCA
* * *
2020089 ATGCCTACACAAGTTAGTAGCACC
61 AAGCC--CACAAGTCAGTGGCACC
2020113 TTTTTATAAA
Statistics
Matches: 376, Mismatches: 40, Indels: 36
0.83 0.09 0.08
Matches are distributed among these distances:
112 25 0.07
113 24 0.06
114 14 0.04
115 11 0.03
116 118 0.31
117 37 0.10
118 14 0.04
119 16 0.04
120 82 0.22
121 11 0.03
122 10 0.03
124 14 0.04
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (117 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCACACAAGTCAGTGGCAACTCCTTTCAAAGCC
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTC
Found at i:2021003 original size:20 final size:20
Alignment explanation
Indices: 2020978--2021051 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
2020968 TACCTAGATA
2020978 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * * *
2020998 TATCGATATATGTATGAATG
1 TATCGATACATTTTTCAATG
* * *
2021018 TATCAATAAATTCTTCAATG
1 TATCGATACATTTTTCAATG
2021038 TATCGATACATTTT
1 TATCGATACATTTT
2021052 GTCTTTCTAC
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:2028969 original size:16 final size:17
Alignment explanation
Indices: 2028950--2029011 Score: 67
Period size: 16 Copynumber: 3.7 Consensus size: 17
2028940 TATTATAATA
2028950 ATATTTA-AAATATTTT
1 ATATTTATAAATATTTT
2028966 ATATTTATATAA-ATTTT
1 ATATTTATA-AATATTTT
* *
2028983 A-ATATATAAATAATTT
1 ATATTTATAAATATTTT
2028999 ATATTATATAAAT
1 ATATT-TATAAAT
2029012 TTTAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 2 0.05
16 18 0.47
17 9 0.24
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATTTATAAATATTTT
Found at i:2028973 original size:28 final size:28
Alignment explanation
Indices: 2028900--2028987 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
2028890 ATTTAAATAT
*
2028900 AATAATTTATGTATTTATAAT-ATATTTA
1 AATATTTTAT-TATTTATAATAATATTTA
**
2028928 TGTATTTTATTATATTATAATAATATTTAA
1 AATATTTTATTAT-TTATAATAATATTT-A
*
2028958 AATATTTTA-TATTTAT-ATAA-ATTTT
1 AATATTTTATTATTTATAATAATATTTA
2028983 AATAT
1 AATAT
2028988 ATAAATAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
25 5 0.10
26 4 0.08
27 7 0.14
28 18 0.35
29 9 0.18
30 8 0.16
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
AATATTTTATTATTTATAATAATATTTA
Found at i:2028990 original size:14 final size:14
Alignment explanation
Indices: 2028971--2029021 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
2028961 ATTTTATATT
2028971 TATATAAATTTTAA
1 TATATAAATTTTAA
2028985 TATATAAATAATTTATA
1 TATATAAAT--TTTA-A
2029002 TTATATAAATTTTAA
1 -TATATAAATTTTAA
*
2029017 AATAT
1 TATAT
2029022 TAATATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 13 0.41
15 1 0.03
16 8 0.25
17 1 0.03
18 9 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:2028994 original size:33 final size:33
Alignment explanation
Indices: 2028948--2029037 Score: 119
Period size: 32 Copynumber: 2.7 Consensus size: 33
2028938 TATATTATAA
*
2028948 TAATATTTAAAATATTTTATATTTATATAAATTT
1 TAATATAT-AAATATTTTATATTTATATAAATTT
*
2028982 TAATATATAAATAATTTATA-TTATATAAATTT
1 TAATATATAAATATTTTATATTTATATAAATTT
* *
2029014 TAAAATATTAATATATTTATATTT
1 TAATATATAAATAT-TTTATATTT
2029038 TTTATATTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 23 0.47
33 17 0.35
34 9 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
TAATATATAAATATTTTATATTTATATAAATTT
Found at i:2028995 original size:18 final size:18
Alignment explanation
Indices: 2028948--2029031 Score: 54
Period size: 18 Copynumber: 5.0 Consensus size: 18
2028938 TATATTATAA
* *
2028948 TAATATTTAAA-ATATTT
1 TAATATATAAATAAATTT
* *
2028965 T-ATATTTATATAAATTT
1 TAATATATAAATAAATTT
2028982 TAATATATAAAT-AA-TT
1 TAATATATAAATAAATTT
*
2028998 T-ATAT-TATATAAATTT
1 TAATATATAAATAAATTT
* * *
2029014 TAAAATATTAATATATTT
1 TAATATATAAATAAATTT
2029032 ATATTTTTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
14 4 0.08
15 6 0.12
16 14 0.27
17 12 0.23
18 16 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATATATAAATAAATTT
Found at i:2029015 original size:16 final size:16
Alignment explanation
Indices: 2028961--2029015 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 16
2028951 TATTTAAAAT
2028961 ATTTTATATTTATATAA
1 ATTTTATA-TTATATAA
2028978 ATTTTA-A-TATATAA
1 ATTTTATATTATATAA
2028992 ATAATTTATATTATATAA
1 AT--TTTATATTATATAA
2029010 ATTTTA
1 ATTTTA
2029016 AAATATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
14 9 0.26
16 9 0.26
17 7 0.21
18 9 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTATATTATATAA
Found at i:2032468 original size:2 final size:2
Alignment explanation
Indices: 2032463--2032492 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2032453 ATATATATAA
2032463 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2032493 CTTCAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2033421 original size:78 final size:77
Alignment explanation
Indices: 2033281--2033557 Score: 288
Period size: 78 Copynumber: 3.5 Consensus size: 77
2033271 ATATTAACTT
* * * * * * *
2033281 AATTAAGTAATTTAATAACTAATAGATAAGAACATAATAAAACGTAACAATATTATTTTTTATTA
1 AATTAAGTAATTTGATAATTAATAGATAATAAAATAATAAAATGTAATAATATTACTTTTTATTA
* *
2033346 AAATGAGTAACA
66 AAAGGAGTAAGA
* *
2033358 AATTAAGTAATTTGATTATTAATAGATAATAAATATAATAAAATGCAATAATATTACTTTTTATT
1 AATTAAGTAATTTGATAATTAATAGATAATAAA-ATAATAAAATGTAATAATATTACTTTTTATT
2033423 AAAAGGAGTAAGA
65 AAAAGGAGTAAGA
* * * ** *
2033436 AATTAAATAATTTGATAATTAATATAT-ATAAGAAGAATAAAATGTAATTGTATTACTTTTATGT
1 AATTAAGTAATTTGATAATTAATAGATAATAA-AATAATAAAATGTAATAATATTACTTTT-TAT
*
2033500 TAAAAGGTGTAAGA
64 TAAAAGGAGTAAGA
* *
2033514 AATTACGTAAGTT-AGTAATTAATATGTATAATAATAATATATAA
1 AATTAAGTAATTTGA-TAATTAATA-G-ATAATAA-AATA-ATAA
2033558 TAATATTTGT
Statistics
Matches: 166, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
77 56 0.34
78 97 0.58
80 2 0.01
81 7 0.04
82 4 0.02
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (77 bp):
AATTAAGTAATTTGATAATTAATAGATAATAAAATAATAAAATGTAATAATATTACTTTTTATTA
AAAGGAGTAAGA
Found at i:2034316 original size:17 final size:18
Alignment explanation
Indices: 2034294--2034339 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
2034284 ATATTAAATT
* *
2034294 TAAAAAATAAATTTAA-A
1 TAAAAAATAAAATCAATA
2034311 TAAAAAATAAAATCAATA
1 TAAAAAATAAAATCAATA
2034329 TAAAAAA-AAAA
1 TAAAAAATAAAA
2034340 GATATCTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
TAAAAAATAAAATCAATA
Found at i:2034332 original size:22 final size:22
Alignment explanation
Indices: 2034297--2034339 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2034287 TTAAATTTAA
* *
2034297 AAAATAAATTTAAATAAAAAAT
1 AAAATAAATATAAAAAAAAAAT
*
2034319 AAAATCAATATAAAAAAAAAA
1 AAAATAAATATAAAAAAAAAA
2034340 GATATCTTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAATAAATATAAAAAAAAAAT
Found at i:2034438 original size:19 final size:19
Alignment explanation
Indices: 2034405--2034458 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
2034395 GTTTTCTAAT
*
2034405 TATATAATATTATAATATAA
1 TATAAAATATTATAATAT-A
*
2034425 TATAAAAT-TTATAAAATA
1 TATAAAATATTATAATATA
2034443 TATAAAATATTATAAT
1 TATAAAATATTATAAT
2034459 TTAAATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.30
19 14 0.47
20 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TATAAAATATTATAATATA
Found at i:2034505 original size:32 final size:31
Alignment explanation
Indices: 2034436--2034507 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
2034426 ATAAAATTTA
2034436 TAAAATATATAAAATATTATAATTTAAATAT
1 TAAAATATATAAAATATTATAATTTAAATAT
* *
2034467 TAAAAATATATTAAATTATTTATATTTTAAA-AT
1 T-AAAATATA-TAAAATA-TTATAATTTAAATAT
2034500 TAAAATAT
1 TAAAATAT
2034508 TTACTAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 1 0.03
32 15 0.42
33 9 0.25
34 11 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
TAAAATATATAAAATATTATAATTTAAATAT
Found at i:2035595 original size:44 final size:41
Alignment explanation
Indices: 2035547--2035628 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 41
2035537 AATTTAAATC
*
2035547 ATATTTTATATATAT-ATATTAAATCTAAATATAAAATTTTATCA
1 ATATTTTAAATATATCAT-TTAAA-C-AAATAT-AAATTTTATCA
2035591 ATATTTTAAATATATCCATTTAAACAAATATAAATTTT
1 ATATTTTAAATATAT-CATTTAAACAAATATAAATTTT
2035629 CTTTAGCCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
42 7 0.20
43 6 0.17
44 15 0.43
45 5 0.14
46 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (41 bp):
ATATTTTAAATATATCATTTAAACAAATATAAATTTTATCA
Found at i:2037102 original size:15 final size:15
Alignment explanation
Indices: 2037082--2037113 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2037072 TGAAAGCGTT
2037082 ATTATCATATTATTA
1 ATTATCATATTATTA
2037097 ATTATCATATTATTA
1 ATTATCATATTATTA
2037112 AT
1 AT
2037114 GACATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATCATATTATTA
Found at i:2037123 original size:15 final size:15
Alignment explanation
Indices: 2037085--2037124 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
2037075 AAGCGTTATT
*
2037085 ATCATATTATTAATT
1 ATCATATTATTAATG
2037100 ATCATATTATTAATG
1 ATCATATTATTAATG
2037115 A-CATAATTAT
1 ATCAT-ATTAT
2037125 CATTACCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
ATCATATTATTAATG
Found at i:2039193 original size:20 final size:20
Alignment explanation
Indices: 2039170--2039239 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
2039160 ACAATTCAAA
2039170 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
2039190 GTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2039211 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2039231 GTATCGATA
1 GTATCGATA
2039240 TATGAAAAAG
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 24 0.62
21 15 0.38
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2039214 original size:21 final size:21
Alignment explanation
Indices: 2039188--2039260 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
2039178 ACATGTTGCA
2039188 ATGTATCGATATATGAAAAAG
1 ATGTATCGATATATGAAAAAG
* ****
2039209 ATGTATCGATACATGTTGCA-
1 ATGTATCGATATATGAAAAAG
2039229 ATGTATCGATATATGAAAAAG
1 ATGTATCGATATATGAAAAAG
2039250 ATGTATCGATA
1 ATGTATCGATA
2039261 CATTTCTTGG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 15 0.37
21 26 0.63
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (21 bp):
ATGTATCGATATATGAAAAAG
Found at i:2039219 original size:41 final size:41
Alignment explanation
Indices: 2039170--2039263 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2039160 ACAATTCAAA
2039170 GTATCGATACATGTTGCAATGTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATATATGAAAAAGAT
2039211 GTATCGATACATGTTGCAATGTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATATATGAAAAAGAT
2039252 GTATCGATACAT
1 GTATCGATACAT
2039264 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATATATGAAAAAGAT
Found at i:2039320 original size:13 final size:13
Alignment explanation
Indices: 2039302--2039327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2039292 TACAGCAAGT
2039302 ATGTATCGATACA
1 ATGTATCGATACA
2039315 ATGTATCGATACA
1 ATGTATCGATACA
2039328 CAAAAATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2045250 original size:2 final size:2
Alignment explanation
Indices: 2045243--2045300 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
2045233 CTCTGAGTTT
*
2045243 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
2045285 TA TT TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA
2045301 AAACCACGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2048140 original size:49 final size:49
Alignment explanation
Indices: 2048087--2048186 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
2048077 CATCTGCTGC
* *
2048087 TAAAGGGGCGTTGTAATTTGAAAGAAATGGTATTTAAATAAATAAAAGA
1 TAAAGGGGCGTAGTAATTTGAAAGAAAGGGTATTTAAATAAATAAAAGA
*
2048136 TAAAGGGGCGTAGTCATTTGAAAGAAAGGGTATTTAAATAAATAAAAGA
1 TAAAGGGGCGTAGTAATTTGAAAGAAAGGGTATTTAAATAAATAAAAGA
2048185 TA
1 TA
2048187 GGCGGTGAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.47, C:0.03, G:0.23, T:0.27
Consensus pattern (49 bp):
TAAAGGGGCGTAGTAATTTGAAAGAAAGGGTATTTAAATAAATAAAAGA
Found at i:2050033 original size:16 final size:16
Alignment explanation
Indices: 2049999--2050049 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
2049989 ATTAATTATT
* *
2049999 AAATATTCTTATATTA
1 AAATATACTTATATCA
*
2050015 AAATATACTTTTATCA
1 AAATATACTTATATCA
* *
2050031 AAA-ATAATTATATGA
1 AAATATACTTATATCA
2050046 AAAT
1 AAAT
2050050 TTAAATATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (16 bp):
AAATATACTTATATCA
Found at i:2050476 original size:15 final size:18
Alignment explanation
Indices: 2050442--2050477 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2050432 TTGTTAAAAT
2050442 AATAATATTGTTTTATTA
1 AATAATATTGTTTTATTA
2050460 AATAAT-TT-TTTTA-TA
1 AATAATATTGTTTTATTA
2050475 AAT
1 AAT
2050478 TCTAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.28
16 5 0.28
17 2 0.11
18 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
AATAATATTGTTTTATTA
Found at i:2050651 original size:3 final size:3
Alignment explanation
Indices: 2050643--2050677 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2050633 TTAAATATTT
2050643 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2050678 TTTTACTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2051307 original size:18 final size:19
Alignment explanation
Indices: 2051286--2051328 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2051276 CTTTTTTTAA
2051286 TTTTTAA-AATTTT-TCTAT
1 TTTTTAATAATTTTAT-TAT
*
2051304 TTTTTAATTATTTTATTAT
1 TTTTTAATAATTTTATTAT
2051323 TTTTTA
1 TTTTTA
2051329 TATTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 14 0.64
20 1 0.05
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTAATAATTTTATTAT
Found at i:2052379 original size:18 final size:18
Alignment explanation
Indices: 2052358--2052413 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
2052348 ATTTTTCTTT
*
2052358 TTTTTCTTTTTTTTTAAG
1 TTTTACTTTTTTTTTAAG
*** *
2052376 TTTTGGGTTTCTTTTAAG
1 TTTTACTTTTTTTTTAAG
2052394 -TTTACTATTTTTTTTAAG
1 TTTTACT-TTTTTTTTAAG
2052412 TT
1 TT
2052414 CAAAAAGATC
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
17 3 0.11
18 24 0.86
19 1 0.04
ACGTcount: A:0.14, C:0.05, G:0.11, T:0.70
Consensus pattern (18 bp):
TTTTACTTTTTTTTTAAG
Found at i:2052949 original size:51 final size:51
Alignment explanation
Indices: 2052880--2052987 Score: 207
Period size: 51 Copynumber: 2.1 Consensus size: 51
2052870 TTCAAATAAG
*
2052880 TATTAATACATTCTAAATAAATAAATTTATGGATATATTATGATTTCAAAT
1 TATTAATACATTCTAAATAAATAAATTTATGAATATATTATGATTTCAAAT
2052931 TATTAATACATTCTAAATAAATAAATTTATGAATATATTATGATTTCAAAT
1 TATTAATACATTCTAAATAAATAAATTTATGAATATATTATGATTTCAAAT
2052982 TATTAA
1 TATTAA
2052988 AAATTTCAGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.44
Consensus pattern (51 bp):
TATTAATACATTCTAAATAAATAAATTTATGAATATATTATGATTTCAAAT
Found at i:2053699 original size:15 final size:16
Alignment explanation
Indices: 2053678--2053719 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
2053668 CAATATAACA
2053678 TTTTATATATTTAATC
1 TTTTATATATTTAATC
*
2053694 TTTATAATATATTTATTC
1 TTT-T-ATATATTTAATC
2053712 -TTTATATA
1 TTTTATATA
2053720 ATAAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 3 0.13
18 11 0.48
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTATATATTTAATC
Found at i:2053722 original size:20 final size:18
Alignment explanation
Indices: 2053682--2053717 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2053672 ATAACATTTT
2053682 ATATATTTAATCTTTATA
1 ATATATTTAATCTTTATA
*
2053700 ATATATTTATTCTTTATA
1 ATATATTTAATCTTTATA
2053718 TAATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATATTTAATCTTTATA
Found at i:2053729 original size:22 final size:23
Alignment explanation
Indices: 2053714--2053766 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
2053704 ATTTATTCTT
2053714 TATATA-ATAAAAATTTAATATA
1 TATATATATAAAAATTTAATATA
*
2053736 TATATATAT-AAAA-CTAATATA
1 TATATATATAAAAATTTAATATA
2053757 TAT-TATATAA
1 TATATATATAA
2053767 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 10 0.36
23 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TATATATATAAAAATTTAATATA
Found at i:2053771 original size:24 final size:25
Alignment explanation
Indices: 2053713--2053772 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
2053703 TATTTATTCT
* *
2053713 TTATATAATAAAAATTTAATATATA
1 TTATATAATTAAAATCTAATATATA
2053738 -TATAT-A-TAAAA-CTAATATATA
1 TTATATAATTAAAATCTAATATATA
2053759 TTATATAATTAAAA
1 TTATATAATTAAAA
2053773 ATAAGTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 9 0.30
22 9 0.30
23 2 0.07
24 10 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TTATATAATTAAAATCTAATATATA
Found at i:2053870 original size:19 final size:19
Alignment explanation
Indices: 2053824--2053889 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
2053814 ATCTGATATA
2053824 TTTTTAAA--TAAACTTTACT
1 TTTTTAAATTTAAA-TTTA-T
2053843 TTTTT--ATTTAAATTTAT
1 TTTTTAAATTTAAATTTAT
2053860 TTTTTAAATTTAATATTT-T
1 TTTTTAAATTTAA-ATTTAT
*
2053879 TATTTAAATTT
1 TTTTTAAATTT
2053890 TTTAAATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
17 7 0.17
18 4 0.10
19 26 0.63
20 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAAATTTAAATTTAT
Found at i:2053915 original size:28 final size:28
Alignment explanation
Indices: 2053858--2053917 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
2053848 ATTTAAATTT
* *
2053858 ATTTTTTAAATTTAATATTTTTATTTAA
1 ATTTTTTAAATTTAATATTATTATTAAA
2053886 ATTTTTTAAATATTAA-ATTAATT-TTAAA
1 ATTTTTTAAAT-TTAATATT-ATTATTAAA
2053914 ATTT
1 ATTT
2053918 AAACAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
ATTTTTTAAATTTAATATTATTATTAAA
Found at i:2053919 original size:18 final size:15
Alignment explanation
Indices: 2053849--2053920 Score: 64
Period size: 13 Copynumber: 4.8 Consensus size: 15
2053839 TACTTTTTTA
2053849 TTTAAATTT--ATTT
1 TTTAAATTTAAATTT
2053862 TTTAAATTT-AATATT
1 TTTAAATTTAAAT-TT
2053877 TTT--ATTTAAATTT
1 TTTAAATTTAAATTT
2053890 TTTAAATATTAAATTAAT
1 TTTAAAT-TTAAATT--T
2053908 TTTAAAATTTAAA
1 TTT-AAATTTAAA
2053921 CAAATAACTA
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
13 18 0.36
14 5 0.10
15 7 0.14
16 7 0.14
18 9 0.18
19 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAAATTTAAATTT
Found at i:2054184 original size:12 final size:14
Alignment explanation
Indices: 2054157--2054188 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
2054147 AAATTATATT
2054157 AATTTATTTCAAAA
1 AATTTATTTCAAAA
2054171 AATTTA-TT-AAAA
1 AATTTATTTCAAAA
2054183 AATTTA
1 AATTTA
2054189 AATAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.56
13 2 0.11
14 6 0.33
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
AATTTATTTCAAAA
Found at i:2054211 original size:21 final size:22
Alignment explanation
Indices: 2054170--2054211 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2054160 TTATTTCAAA
*
2054170 AAATTTATTAAAAAATTTAAAT
1 AAATTTATTAAAAAATATAAAT
*
2054192 AAATTTA-TAATAAATATAAA
1 AAATTTATTAAAAAATATAAA
2054212 ACTAATGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATTTATTAAAAAATATAAAT
Found at i:2055443 original size:3 final size:3
Alignment explanation
Indices: 2055435--2055477 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2055425 ATTTCAAAAA
2055435 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2055478 ACAGTCTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2055968 original size:28 final size:28
Alignment explanation
Indices: 2055937--2056023 Score: 79
Period size: 28 Copynumber: 3.0 Consensus size: 28
2055927 ATAAATATAA
*
2055937 AAAAATTATTTAAAATATAATATAATAT
1 AAAAATTATATAAAATATAATATAATAT
* *
2055965 AAAAATAATAT-AAATAT-ATATAAATTTTT
1 AAAAATTATATAAAATATAATAT-AA--TAT
2055994 AAAAATTTATATAAATATATAATTATAATA
1 AAAAA-TTATATAAA-ATATAA-TATAATA
2056024 CAAGGAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
26 4 0.09
27 8 0.17
28 9 0.20
29 7 0.15
30 5 0.11
31 3 0.07
32 4 0.09
33 3 0.07
34 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AAAAATTATATAAAATATAATATAATAT
Found at i:2055988 original size:10 final size:10
Alignment explanation
Indices: 2055927--2056014 Score: 60
Period size: 10 Copynumber: 9.1 Consensus size: 10
2055917 TATAACTTGA
*
2055927 ATAAATATAA
1 ATAAATATAT
*
2055937 AAAAAT-TAT
1 ATAAATATAT
*
2055946 TTAAA-ATAT
1 ATAAATATAT
2055955 AATATAATATA-
1 -ATA-AATATAT
2055966 A-AAATA-AT
1 ATAAATATAT
2055974 ATAAATATAT
1 ATAAATATAT
* *
2055984 ATAAATTTTT
1 ATAAATATAT
* *
2055994 AAAAATTTAT
1 ATAAATATAT
2056004 ATAAATATAT
1 ATAAATATAT
2056014 A
1 A
2056015 ATTATAATAC
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
7 1 0.02
8 5 0.08
9 14 0.23
10 35 0.58
11 2 0.03
12 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATAAATATAT
Found at i:2057403 original size:26 final size:27
Alignment explanation
Indices: 2057372--2057435 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
2057362 TATATATTAA
*
2057372 ATAAATTTAA-ATTATTTTTTTAAATT
1 ATAAATTTAATATTACTTTTTTAAATT
* **
2057398 ATAAATATTAATTTTACTTTTTTATTTT
1 ATAAAT-TTAATATTACTTTTTTAAATT
2057426 AT-AATTTAAT
1 ATAAATTTAAT
2057436 TTTATATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.34
27 7 0.22
28 14 0.44
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
ATAAATTTAATATTACTTTTTTAAATT
Found at i:2057436 original size:26 final size:28
Alignment explanation
Indices: 2057387--2057439 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
2057377 TTTAAATTAT
2057387 TTTTTTAAATTATAAATATTAATTTTAC
1 TTTTTTAAATTATAAATATTAATTTTAC
**
2057415 TTTTTTATTTTAT-AAT-TTAATTTTA
1 TTTTTTAAATTATAAATATTAATTTTA
2057440 TATTATTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 3 0.13
28 11 0.48
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTTTAAATTATAAATATTAATTTTAC
Found at i:2057448 original size:26 final size:28
Alignment explanation
Indices: 2057396--2057448 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
2057386 TTTTTTTAAA
*
2057396 TTATAAATATTAATTTTACTTTTTTATT
1 TTATAAATATTAATTTTACTTTATTATT
2057424 TTAT-AAT-TTAATTTTA-TATTATTAT
1 TTATAAATATTAATTTTACT-TTATTAT
2057449 GTAAAAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 1 0.04
26 15 0.65
27 3 0.13
28 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
TTATAAATATTAATTTTACTTTATTATT
Found at i:2059890 original size:20 final size:21
Alignment explanation
Indices: 2059851--2059890 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2059841 TTAAATTCAG
**
2059851 ATTATAAAATATTTTGAATTC
1 ATTATAAAATATTTCAAATTC
2059872 ATTATAAAA-ATTTCAAATT
1 ATTATAAAATATTTCAAATT
2059891 ATAAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (21 bp):
ATTATAAAATATTTCAAATTC
Found at i:2059893 original size:16 final size:17
Alignment explanation
Indices: 2059872--2059904 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2059862 TTTTGAATTC
2059872 ATTATAAA-AATTTCAA
1 ATTATAAATAATTTCAA
2059888 ATTATAAATAATTTCAA
1 ATTATAAATAATTTCAA
2059905 GGCTTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTATAAATAATTTCAA
Found at i:2062723 original size:34 final size:34
Alignment explanation
Indices: 2062685--2062751 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 34
2062675 CCTTATAACA
*
2062685 CTATC-TTTCAAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTAAAGGCTAAGATAG-AACCTCTCTCT
2062719 CTATCTTTTTTAAAGGCTAAGATAGAACCTCTC
1 CTATC--TTTTAAAGGCTAAGATAGAACCTCTC
2062752 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 8 0.28
37 16 0.55
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (34 bp):
CTATCTTTTAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2063240 original size:13 final size:13
Alignment explanation
Indices: 2063221--2063259 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2063211 ACTATTTATG
2063221 ATGTATCGATACA
1 ATGTATCGATACA
* *
2063234 CTGTATCGATATA
1 ATGTATCGATACA
2063247 ATGTATCGATACA
1 ATGTATCGATACA
2063260 TGAATAGTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2063360 original size:21 final size:22
Alignment explanation
Indices: 2063330--2063385 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
2063320 ACAGTGACCT
2063330 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
2063352 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
*
2063373 ATGAACATTGATG
1 ATGAACAGTGATG
2063386 AACAGCGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:2063511 original size:53 final size:53
Alignment explanation
Indices: 2063454--2063554 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
2063444 ATATATATTT
* *
2063454 TGTGTATCGATACAAATTTGGCTACTGTCAGTGACCTGTATCGATACACACAA
1 TGTGTATCGATACAAATTTGGCTACTGCCAATGACCTGTATCGATACACACAA
*
2063507 TGTGTATCGATACAAATTTGGCTACTGCCAATGTCCTGTATCGATACA
1 TGTGTATCGATACAAATTTGGCTACTGCCAATGACCTGTATCGATACA
2063555 TATTTGTGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (53 bp):
TGTGTATCGATACAAATTTGGCTACTGCCAATGACCTGTATCGATACACACAA
Found at i:2063609 original size:21 final size:20
Alignment explanation
Indices: 2063561--2063615 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
2063551 TACATATTTG
**
2063561 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
2063581 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
2063602 TGTGTATCGATACT
1 TGTGTATCGATACT
2063616 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:2064858 original size:18 final size:18
Alignment explanation
Indices: 2064835--2064870 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2064825 AATTTTACTT
*
2064835 TTTTATTTTATAATTTAA
1 TTTTATATTATAATTTAA
*
2064853 TTTTATATTATTATTTAA
1 TTTTATATTATAATTTAA
2064871 AAGGAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATATTATAATTTAA
Found at i:2070691 original size:97 final size:97
Alignment explanation
Indices: 2070459--2070691 Score: 249
Period size: 97 Copynumber: 2.4 Consensus size: 97
2070449 ATGGGGCTGA
* * * * *
2070459 AGTATCCCTTTGGAGGAATAGGGTTGGAGTGTCCTC-AGTGATAGCAATTTATGCAAAGATAAGA
1 AGTATCCCTTTGGAAGAATGGGGTTGGAGTATCCTCGA-TGATAGCAATTTATGCAAAAACAAGA
*
2070523 CTTAAATCTTGACAAGTTTTAAAAACGGGTTGG
65 CTTAAATCTTAACAAGTTTTAAAAACGGGTTGG
* * * * * *
2070556 AATATCTCTTCGTAAGAATGGGGTTAGAGTATCATCGATGAT-GACAATTT-TAGCAAAAACAAG
1 AGTATCCCTTTGGAAGAATGGGGTTGGAGTATCCTCGATGATAG-CAATTTAT-GCAAAAACAAG
* * *
2070619 ATTTAAGTCTTAACAAG-TTTAAAAACGGGGTTTG
64 ACTTAAATCTTAACAAGTTTTAAAAAC-GGGTTGG
* *
2070653 AGTATCCCTTTGGAAAAATGGGGTTGGAGTACCCTCGAT
1 AGTATCCCTTTGGAAGAATGGGGTTGGAGTATCCTCGAT
2070692 AAATAAAATT
Statistics
Matches: 109, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
96 11 0.10
97 97 0.89
98 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (97 bp):
AGTATCCCTTTGGAAGAATGGGGTTGGAGTATCCTCGATGATAGCAATTTATGCAAAAACAAGAC
TTAAATCTTAACAAGTTTTAAAAACGGGTTGG
Found at i:2072901 original size:32 final size:33
Alignment explanation
Indices: 2072843--2072905 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
2072833 TCCTTGTATG
*
2072843 TATCGATACATTATGCTTTGTATCGATACATTA
1 TATCGATACATTATGCATTGTATCGATACATTA
2072876 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
2072906 GCACAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTA
Found at i:2072916 original size:20 final size:19
Alignment explanation
Indices: 2072870--2072926 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2072860 TTGTATCGAT
* *
2072870 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGC
*
2072889 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
2072908 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2072927 AAACTGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:2076202 original size:20 final size:20
Alignment explanation
Indices: 2076160--2076204 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2076150 AAAACCCAGA
* * * *
2076160 TGTATCGATACAATTTTCTT
1 TGTATCAATACAATATACAT
2076180 TGTATCAATACAATATACAT
1 TGTATCAATACAATATACAT
2076200 TGTAT
1 TGTAT
2076205 TGATACATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (20 bp):
TGTATCAATACAATATACAT
Done.